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    Cwc22 CWC22 spliceosome-associated protein [ Mus musculus (house mouse) ]

    Gene ID: 80744, updated on 5-Aug-2018

    Summary

    Official Symbol
    Cwc22provided by MGI
    Official Full Name
    CWC22 spliceosome-associated proteinprovided by MGI
    Primary source
    MGI:MGI:2136773
    See related
    Ensembl:ENSMUSG00000027014 Vega:OTTMUSG00000013258
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    AA684037; AI173004; AL022752; mKIAA1604; B230213M24
    Expression
    Broad expression in CNS E11.5 (RPKM 12.6), liver E14 (RPKM 8.0) and 22 other tissues See more
    Orthologs

    Genomic context

    See Cwc22 in Genome Data Viewer
    Location:
    2; 2 C3
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (77895653..77946356, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (77733710..77784240, complement)

    Chromosome 2 - NC_000068.7Genomic Context describing neighboring genes Neighboring gene zinc finger protein 385B Neighboring gene spermine synthase pseudogene Neighboring gene predicted gene, 35431 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene RIKEN cDNA 4930440I19 gene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC7531, MGC107219, MGC107450

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    U2-type catalytic step 1 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    pre-mRNA-splicing factor CWC22 homolog
    Names
    CWC22 spliceosome-associated protein homolog
    nucampholin homolog

    NCBI Reference Sequences (RefSeq)

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001290740.1NP_001277669.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

      See identical proteins and their annotated locations for NP_001277669.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 4.
      Source sequence(s)
      AK045589, AK077961, AL928791, BU613482
      Consensus CDS
      CCDS71080.1
      UniProtKB/Swiss-Prot
      Q8C5N3
      UniProtKB/TrEMBL
      B1AYU7
      Related
      ENSMUSP00000107450.1, OTTMUSP00000014256, ENSMUST00000111819.7, OTTMUST00000032036
      Conserved Domains (2) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
    2. NM_001362657.1NP_001349586.1  pre-mRNA-splicing factor CWC22 homolog isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) encodes the longest isoform (4).
      Source sequence(s)
      AL928791, AL928915
      Conserved Domains (4) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
      cl25887
      Location:9168
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:717902
      Rho; Transcription termination factor Rho [Transcription]
    3. NM_001362658.1NP_001349587.1  pre-mRNA-splicing factor CWC22 homolog isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (1) has the same N- and C-termini but is 1 aa shorter compared to isoform 4. Variants 1 and 5 both encode the same isoform (1).
      Source sequence(s)
      AL928791, AL928915
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:716901
      Rho; Transcription termination factor Rho [Transcription]
    4. NM_001362659.1NP_001349588.1  pre-mRNA-splicing factor CWC22 homolog isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and uses two alternate in-frame splice junctions compared to variant 4. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 4. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AL928791, AL928915
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:721894
      Rho; Transcription termination factor Rho [Transcription]
    5. NM_001362664.1NP_001349593.1  pre-mRNA-splicing factor CWC22 homolog isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 3' UTR and coding sequence and uses two alternate in-frame splice junctions compared to isoform 4. The resulting isoform (5) lacks an alternate internal aa and has a shorter and distinct C-terminus compared to isoform 4.
      Source sequence(s)
      AL928791, AL928915
      Conserved Domains (3) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      cl02653
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    6. NM_030560.5NP_085037.2  pre-mRNA-splicing factor CWC22 homolog isoform 1

      See identical proteins and their annotated locations for NP_085037.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (1) has the same N- and C-termini but is 1 aa shorter compared to isoform 4. Variants 1 and 5 both encode the same isoform (1).
      Source sequence(s)
      AK077961, AL928791, BU613482
      Consensus CDS
      CCDS16165.1
      UniProtKB/Swiss-Prot
      Q8C5N3
      Related
      ENSMUSP00000064947.3, OTTMUSP00000014253, ENSMUST00000065889.9, OTTMUST00000032030
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:716901
      Rho; Transcription termination factor Rho [Transcription]
    7. NM_172667.2NP_766255.1  pre-mRNA-splicing factor CWC22 homolog isoform 2

      See identical proteins and their annotated locations for NP_766255.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses two alternate in-frame splice junctions compared to variant 4. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 4. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AK045589, AK077961, AL928791, BU613482
      Consensus CDS
      CCDS57178.1
      UniProtKB/Swiss-Prot
      Q8C5N3
      Related
      ENSMUSP00000107449.1, OTTMUSP00000014254, ENSMUST00000111818.7, OTTMUST00000032034
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:721894
      Rho; Transcription termination factor Rho [Transcription]

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      77895653..77946356 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006500434.1XP_006500497.1  pre-mRNA-splicing factor CWC22 homolog isoform X1

      Conserved Domains (4) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
      cl25887
      Location:9168
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:717902
      Rho; Transcription termination factor Rho [Transcription]
    2. XM_006500436.3XP_006500499.1  pre-mRNA-splicing factor CWC22 homolog isoform X4

      UniProtKB/Swiss-Prot
      Q8C5N3
      Related
      ENSMUSP00000107452.2, ENSMUST00000111821.8
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:716901
      Rho; Transcription termination factor Rho [Transcription]
    3. XM_011239856.1XP_011238158.1  pre-mRNA-splicing factor CWC22 homolog isoform X3

      UniProtKB/Swiss-Prot
      Q8C5N3
      Conserved Domains (4) summary
      smart00543
      Location:162343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:454560
      MA3; MA3 domain
      cl25887
      Location:9167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:721894
      Rho; Transcription termination factor Rho [Transcription]
    4. XM_006500437.1XP_006500500.1  pre-mRNA-splicing factor CWC22 homolog isoform X2

      See identical proteins and their annotated locations for XP_006500500.1

      UniProtKB/TrEMBL
      B1AYU7
      Conserved Domains (2) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
    5. XM_006500433.1XP_006500496.1  pre-mRNA-splicing factor CWC22 homolog isoform X1

      See identical proteins and their annotated locations for XP_006500496.1

      Conserved Domains (4) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
      cl25887
      Location:9168
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:717902
      Rho; Transcription termination factor Rho [Transcription]
    6. XM_006500435.3XP_006500498.1  pre-mRNA-splicing factor CWC22 homolog isoform X1

      See identical proteins and their annotated locations for XP_006500498.1

      Conserved Domains (4) summary
      smart00543
      Location:163344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      pfam02847
      Location:455561
      MA3; MA3 domain
      cl25887
      Location:9168
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cl28310
      Location:717902
      Rho; Transcription termination factor Rho [Transcription]
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